# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1nfjA 89 8.60e-16 1h0xA 100 5.49e-15 d.68.6.1 76451 1nh9A 87 6.24e-15 1udvA 89 1.92e-08 1i50K 120 3.02e-03 d.74.3.2 61765 1ml8A 134 3.85e-02 d.227.1.2 85013 1f7uA 607 7.33e-02 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1g60A 260 1.66e-01 c.66.1.11 70151 1nslA 184 2.97e-01 d.108.1.1 86137 1rlkA 117 3.66e-01 2bopA 85 6.04e-01 2bopA d.58.8.1 39217 1nh1A 330 6.40e-01 1nw8A 319 6.81e-01 c.66.1.11 86292 1fa8A 135 8.16e-01 1qipA d.32.1.1 38486 1f9zA 135 8.81e-01 1qipA d.32.1.1 38484 1seiA 130 8.99e-01 1seiA d.140.1.1 41463 1lxjA 104 9.23e-01 d.58.48.1 84736 1eg2A 319 1.10e+00 1eg2A c.66.1.11 34249 1draA 159 1.20e+00 1vdrA c.71.1.1 34831 1dbdA 100 1.28e+00 2bopA d.58.8.1 39218 1fnmA 691 1.32e+00 1dar b.43.3.1 25709 c.37.1.8 32144 d.14.1.1 37546 d.58.11.1 39302 d.58.11.1 39303 1cliA 345 1.38e+00 1cliA d.79.4.1 39816 d.139.1.1 41459 1uw6A 211 1.56e+00 1hmpA 217 1.66e+00 1qk3A c.61.1.1 34075 1f9aA 168 1.69e+00 1f9aA c.26.1.3 31602 1p1lA 102 1.98e+00 d.58.5.2 87695 1i4jA 110 2.08e+00 d.55.1.1 76734 1emsA 440 2.09e+00 1emsA d.13.1.1 37520 d.160.1.1 42086 1uch 230 2.37e+00 1uch d.3.1.6 37129 1feuA 206 2.49e+00 1feuA b.53.1.1 59801 1gd8A 118 2.64e+00 d.188.1.1 60445 1j5xA 342 2.68e+00 c.80.1.1 71591 1nulA 152 2.84e+00 1nulA c.61.1.1 34011 1trb 320 3.01e+00 1trb c.3.1.5 30529 c.3.1.5 30530 1k4nA 192 3.11e+00 d.32.1.5 72059 1ne2A 200 3.24e+00 c.66.1.32 85586 1vk6A 269 3.27e+00 1ej2A 181 3.37e+00 1f9aA c.26.1.3 59414 1j1qA 261 3.39e+00 1bjt 793 3.46e+00 1bjt e.11.1.1 43249 2nlrA 234 3.48e+00 2nlrA b.29.1.11 24344 1oa4A 222 3.49e+00 b.29.1.11 86731 1onrA 316 3.62e+00 1onrA c.1.10.1 29169 1bxeA 113 4.05e+00 1bxeA d.55.1.1 38898 1e19A 314 4.16e+00 1b7bA c.73.1.1 34967 1v2bA 177 4.52e+00 1bs2A 607 4.52e+00 1bs2A a.27.1.1 16930 c.26.1.1 31597 d.67.2.1 39563 1i9bA 217 4.78e+00 1i9bA b.96.1.1 62084 1hw7A 255 4.94e+00 1i7fA d.193.1.1 61297 2pia 321 4.98e+00 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1jmsA 381 5.33e+00 a.60.6.1 66889 a.60.12.1 75862 d.218.1.2 75863 6dfr 159 5.37e+00 1vdrA c.71.1.1 34874 1uv7A 110 5.40e+00 1i2oA 316 5.50e+00 1onrA c.1.10.1 61574 1nlr 234 5.51e+00 2nlrA b.29.1.11 24345 1f9yA 158 5.55e+00 d.58.30.1 83249 1eqoA 158 5.57e+00 1hka d.58.30.1 39432 1hka 158 6.15e+00 1hka d.58.30.1 39433 1dmaA 214 6.16e+00 1aerA d.166.1.1 42251 1rkuA 206 6.51e+00 1qamA 244 6.53e+00 2ercA c.66.1.24 34220 1k8kD 300 6.69e+00 d.198.2.1 68309 d.198.2.1 68310 1iv3A 152 6.76e+00 d.79.5.1 76828 1squA 155 7.04e+00 1dqnA 230 7.35e+00 1dqnA c.61.1.1 34067 1i1gA 141 7.37e+00 a.4.5.32 65982 d.58.4.2 65983 1j27A 102 7.40e+00 1r7aA 504 7.45e+00 1ra9 159 7.52e+00 1vdrA c.71.1.1 34820 1b7fA 168 7.85e+00 1b7fA d.58.7.1 39169 d.58.7.1 39170 1drmA 131 7.97e+00 1drmA d.110.3.2 40908 1dqpA 230 8.34e+00 1dqnA c.61.1.1 34069 1rlw 126 8.70e+00 1rlw b.7.1.1 23177 1lswA 131 8.89e+00 d.110.3.2 78181 1aoeA 192 9.00e+00 1aoeA c.71.1.1 34923 1quqB 121 9.61e+00 1quqB b.40.4.3 25305 1aerA 205 9.62e+00 1aerA d.166.1.1 42249 1ow1A 195 9.79e+00 1fit 147 9.91e+00 1fit d.13.1.1 37499 1obpA 159 1.01e+01 1obpA b.60.1.1 27092 1ayyA 151 1.06e+01 1apyA d.153.1.5 42016 1hgxA 183 1.07e+01 1tc1A c.61.1.1 34027 1ci3M 249 1.07e+01 1hcz b.2.6.1 22480 b.84.2.2 28266 1bzyA 217 1.08e+01 1qk3A c.61.1.1 34071 1gveA 327 1.09e+01 c.1.7.1 70597 1hn2A 159 1.10e+01 b.60.1.1 65890 1gt1A 159 1.10e+01 2occE 109 1.13e+01 2occE a.118.11.1 19224 1d1gA 168 1.14e+01 1d1gA c.71.1.1 34889 1qgoA 264 1.14e+01 1qgoA c.92.1.2 35596 1o0iA 138 1.17e+01 d.38.1.5 86532 1ukuA 102 1.29e+01 1mp9A 198 1.30e+01 1lqpA 135 1.36e+01 d.32.1.2 78151 1i6uA 130 1.38e+01 d.140.1.1 61850 1n13B 113 1.38e+01 1aisA 182 1.40e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1drqA 131 1.42e+01 1drmA 1n9lA 109 1.44e+01 d.110.3.6 85468 1nnlA 225 1.46e+01 c.108.1.4 85906 1v54E 109 1.48e+01 1j9jA 247 1.48e+01 c.106.1.1 62758 1cz3A 168 1.48e+01 1d1gA c.71.1.1 34891 1aw9 216 1.49e+01 1gnwA a.45.1.1 17736 c.47.1.5 33030 1j9lA 247 1.49e+01 c.106.1.1 62762 1bowA 159 1.50e+01 1bowA d.60.1.1 39528 2pcfB 250 1.50e+01 1hcz i.4.1.1 45911 1nkiA 135 1.53e+01 1kr4A 125 1.55e+01 d.58.5.2 72889 1nijA 318 1.55e+01 c.37.1.10 85741 d.237.1.1 85742 1nu0A 138 1.59e+01 1qayA 428 1.63e+01 1qaxA d.58.20.1 39378 d.179.1.1 42599 1kyqA 274 1.65e+01 c.2.1.11 73281 e.37.1.1 73282 1qw2A 102 1.69e+01 1k1gA 131 1.70e+01 d.51.1.1 68015 1jubA 311 1.73e+01 1bpyA 335 1.74e+01 1bpyA a.60.6.1 17980 a.60.12.1 75819 d.218.1.2 75820 1rowA 109 1.74e+01 1gikA 261 1.77e+01 1jm6A 407 1.79e+01 a.29.5.1 66876 d.122.1.4 66877 1gqoX 143 1.81e+01 c.23.13.1 76317 1szwA 379 1.87e+01 2dorA 311 1.89e+01 2dorA c.1.4.1 28593 1nedA 183 1.91e+01 1nedA d.153.1.4 41974 1hyeA 313 1.92e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1ibvB 229 1.99e+01 1r31A 428 2.00e+01 1josA 128 2.00e+01 d.52.7.1 84191 1efvB 255 2.04e+01 1efvB c.26.2.3 31634 1gqoP 143 2.04e+01 c.23.13.1 76310 2fhi 147 2.05e+01 1fit d.13.1.1 37505 1gqoI 143 2.07e+01 c.23.13.1 76303 1gqoK 143 2.08e+01 c.23.13.1 76305 1httA 423 2.08e+01 1adjA c.51.1.1 33178 d.104.1.1 40727 1agqA 135 2.08e+01 1agqA g.17.1.2 44789 1gqoL 143 2.09e+01 c.23.13.1 76306 1f4kA 122 2.10e+01 1bm9A a.4.5.7 59646 1hybA 181 2.12e+01 1f9aA c.26.1.3 61399 1k9vF 201 2.12e+01 c.23.16.1 68365 1gqoN 143 2.17e+01 c.23.13.1 76308 1j5rA 371 2.20e+01 1i7fA 292 2.21e+01 1i7fA d.193.1.1 61888 1fbaA 361 2.21e+01 1fbaA c.1.10.1 29120 1ctqA 166 2.25e+01 1ctqA c.37.1.8 31965 1vhzA 198 2.26e+01 1gqoF 143 2.27e+01 c.23.13.1 76300 1ha1 184 2.28e+01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1jhjA 171 2.29e+01 b.18.1.9 66714 1mgtA 174 2.29e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1q0vA 81 2.30e+01 1j1yA 136 2.31e+01 1l3kA 196 2.31e+01 d.58.7.1 73539 d.58.7.1 73540 1gg6B 131 2.33e+01 5ptp 1muhA 481 2.35e+01 c.55.3.4 79485 1bq3B 246 2.36e+01 1qhfA c.60.1.1 33979 1hf2A 210 2.39e+01 1hf2A b.80.3.1 60992 c.102.1.1 60993 1ub9A 100 2.40e+01 1khhA 198 2.45e+01 c.66.1.16 68615 1dorA 311 2.45e+01 2dorA c.1.4.1 28595 1gqoM 143 2.46e+01 c.23.13.1 76307 1k89 449 2.48e+01 1k89 c.2.1.7 30218 c.58.1.1 33866 1l3iA 192 2.55e+01 c.66.1.22 77676 1d6aB 262 2.55e+01 1qi7A d.165.1.1 42198 1gqoV 143 2.55e+01 c.23.13.1 76316 2bby 69 2.57e+01 2bby a.4.5.15 16148 1uqrA 154 2.57e+01 1gqoY 143 2.58e+01 c.23.13.1 76318 1g3jB 61 2.68e+01 1g3jB j.71.1.1 46366 1dq3A 454 2.69e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1g5hA 454 2.71e+01 1g5hA c.51.1.1 60270 d.104.1.1 60271 1gqoU 143 2.73e+01 c.23.13.1 76315 1k2xA 177 2.78e+01 1p9bA 442 2.78e+01 1gqoH 143 2.81e+01 c.23.13.1 76302 1bby 69 2.84e+01 2bby a.4.5.15 16149 1gqoG 143 2.84e+01 c.23.13.1 76301 2frvA 264 2.84e+01 2frvA e.19.1.1 43303 1pcfA 66 2.88e+01 1pcfA d.18.1.1 38142 1gqoO 143 2.96e+01 c.23.13.1 76309 1gqoR 143 2.99e+01 c.23.13.1 76312 1preA 470 3.00e+01 1preA d.169.1.2 42437 f.8.1.1 43824 1bgvA 449 3.00e+01 1k89 c.2.1.7 30217 c.58.1.1 33865 1gqoQ 143 3.03e+01 c.23.13.1 76311 1qcrA 446 3.06e+01 1be3A d.185.1.1 59025 d.185.1.1 59026 1hrdA 449 3.07e+01 1k89 c.2.1.7 30219 c.58.1.1 33867 1gqoS 143 3.08e+01 c.23.13.1 76313 1h7eA 245 3.21e+01 c.68.1.13 60717 1nzjA 298 3.21e+01 1gqoJ 143 3.22e+01 c.23.13.1 76304 1riqA 465 3.22e+01 1b7gO 340 3.27e+01 1b7gO c.2.1.3 29992 d.81.1.1 39907 1qddA 144 3.28e+01 1qddA d.169.1.1 42324 1grvB 182 3.33e+01 c.61.1.1 76322 1qbeA 132 3.35e+01 1qbeA d.85.1.1 40138 1jhsA 188 3.38e+01 d.107.1.1 84172 1gqoC 143 3.40e+01 c.23.13.1 76297 1ewcA 214 3.42e+01 3seb b.40.2.2 25199 d.15.6.1 37788 1fmaE 150 3.43e+01 1fmaE d.41.5.1 38630 1gqoT 143 3.44e+01 c.23.13.1 76314 1bm9A 122 3.46e+01 1bm9A a.4.5.7 16116 1moq 368 3.48e+01 1moq c.80.1.1 35302 1pyaB 228 3.50e+01 1pyaB 1efpB 252 3.50e+01 1efvB c.26.2.3 31636 1wba 175 3.58e+01 1wba b.42.4.1 25591 1bn7A 294 3.59e+01 1bn6A c.69.1.8 34677 1si7A 369 3.62e+01 1gqoD 143 3.63e+01 c.23.13.1 76298 1kamA 194 3.64e+01 c.26.1.3 72254 1elqA 390 3.65e+01 1elqA c.67.1.3 34436 1jj2Q 154 3.66e+01 1ffkO d.55.1.1 63102 1gqoB 143 3.67e+01 c.23.13.1 76296 3ldh 330 3.67e+01 3ldh i.12.1.1 46015 1j6qA 136 3.69e+01 b.40.9.1 77091 1t2aA 375 3.70e+01 1d4oA 184 3.72e+01 1d4oA c.31.1.4 31748 1eluB 390 3.80e+01 1elqA c.67.1.3 34435 1qhdA 398 3.81e+01 1qhdA a.115.1.2 63324 b.19.1.1 63325 1gqoE 143 3.82e+01 c.23.13.1 76299 2ercA 244 3.83e+01 2ercA c.66.1.24 34224 2ltnA 181 3.86e+01 1led b.29.1.1 24024 1dp4A 435 3.88e+01 1dp4A c.93.1.1 35710 1in0A 163 3.92e+01 d.58.49.1 83694 d.58.49.1 83695 1lokA 291 3.97e+01 c.56.5.4 78122 1fgs 428 3.97e+01 1fgs c.59.1.2 33959 c.72.2.2 34962 1dz3A 130 3.99e+01 1dz3A c.23.1.1 31105 1oj5A 132 3.99e+01